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NC_042106.1__YP_009622867.1__FDJ31_gp69__00069

Bact-Vir

NC_042106.1__YP_009622867.1__FDJ31_gp69__00069

Identity

Accession:
NC_042106 ↗
Kingdom:
phage

Quality

79.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Bingvirus› Streptomyces_phage_Bing

TaxID: 2079427

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 9-55
PDB
Domain cluster: representative
CATH (54)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6pxcA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.72 49.0 3.76e-01 85.1% 31.7%
3ednA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.67 44.0 3.20e-01 80.9% 23.9%
2jkgA00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.66 43.0 2.96e-01 87.2% 18.8%
4ffgA01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.66 47.0 2.88e-01 78.7% 16.6%
1ntyA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.65 45.0 3.34e-01 85.1% 27.4%
1b9mA03 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.65 40.0 3.55e-01 80.9% 39.4%
3buxB03 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.64 44.0 3.70e-01 85.1% 39.5%
8gjaD01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.64 46.0 2.88e-01 78.7% 17.0%
5ek8A01 2.60.40.3330 Mainly Beta › Sandwich › Immunoglobulin-like › 0.64 52.0 3.97e-01 100.0% 62.7%
1kpsC00 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.63 54.0 3.80e-01 100.0% 53.8%
2ivwA01 2.30.30.830 Mainly Beta › Roll › SH3 type barrels. › 0.62 47.0 3.87e-01 83.0% 47.5%
1ivyB00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.61 50.0 2.94e-01 100.0% 11.3%
5jk0B01 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.61 41.0 2.80e-01 85.1% 18.5%
1hp7A01 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.59 50.0 4.09e-01 100.0% 73.7%
1b69A00 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.59 46.0 4.08e-01 89.4% 58.0%
5oomJ01 3.30.1550.10 Alpha Beta › 2-Layer Sandwich › Ribosomal protein L11, N-terminal domain › Ribosomal protein L11/L12, N-terminal domain 0.59 42.0 3.83e-01 78.7% 100.0%
2xnjA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.59 47.0 3.84e-01 100.0% 56.7%
4wiwA02 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.58 39.0 3.65e-01 80.9% 52.2%
3kstA00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.58 43.0 2.73e-01 85.1% 14.1%
2kr7A02 2.40.10.330 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.57 39.0 3.76e-01 83.0% 59.6%
3deeA02 3.90.930.50 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › 0.57 42.0 3.25e-01 80.9% 35.1%
4kghA00 3.15.10.10 Alpha Beta › Super Roll › Bactericidal permeability-increasing protein; domain 1 › Bactericidal permeability-increasing protein; domain 1 0.57 46.0 3.21e-01 100.0% 36.3%
1gydB00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.57 47.0 2.91e-01 97.9% 36.2%
4k08A00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.56 42.0 3.08e-01 87.2% 27.8%
1gteA04 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.56 42.0 2.93e-01 80.9% 39.9%
5w8mA00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.56 45.0 3.04e-01 93.6% 88.8%
3rcyB01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.56 42.0 3.16e-01 89.4% 61.7%
8aimG01 3.10.450.20 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Bacteriophage PBS2, uracil-glycosylase inhibitor 0.56 43.0 3.67e-01 87.2% 60.5%
2g1lA00 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.55 44.0 3.62e-01 97.9% 67.0%
1y96A00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.55 38.0 3.26e-01 87.2% 39.5%
1h2iA01 3.30.390.80 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › DNA repair protein Rad52/59/22 0.55 42.0 3.16e-01 93.6% 39.9%
1tg0A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.55 36.0 3.26e-01 80.9% 45.5%
3hrdC02 3.30.390.50 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › CO dehydrogenase flavoprotein, C-terminal domain 0.55 45.0 3.58e-01 100.0% 59.3%
1c8zA00 3.20.90.10 Alpha Beta › Alpha-Beta Barrel › Tubby Protein; Chain A › Tubby Protein; Chain A 0.55 42.0 2.70e-01 89.4% 24.9%
2xg5A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 42.0 3.44e-01 85.1% 60.9%
3d2lA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.54 37.0 3.54e-01 91.5% 58.7%
3v0aB03 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.53 45.0 2.96e-01 95.7% 84.9%
2lw6A00 2.60.320.40 Mainly Beta › Sandwich › mini-chromosome maintenance (MCM) complex, domain 2 › 0.53 44.0 3.83e-01 100.0% 75.0%
3iayA01 2.40.50.730 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.53 38.0 3.18e-01 83.0% 39.8%
6nvxB02 2.30.120.10 Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region 0.53 38.0 3.40e-01 83.0% 77.9%
2ciuA00 3.10.450.320 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Mitochondrial import inner membrane translocase subunit Tim21 0.53 44.0 3.33e-01 97.9% 51.2%
4yfbC02 2.30.120.10 Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region 0.53 34.0 3.07e-01 70.2% 41.0%
3l50A00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.53 37.0 2.83e-01 80.9% 52.9%
1se8A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.53 40.0 3.04e-01 83.0% 78.4%
1dt9A01 3.30.960.10 Alpha Beta › 2-Layer Sandwich › Translation, Eukaryotic Peptide Chain Release Factor Subunit 1; Chain A › eRF1 domain 1 0.53 38.0 3.11e-01 85.1% 83.8%
7nitA04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 43.0 3.40e-01 100.0% 77.4%
2i87B02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.52 40.0 2.98e-01 97.9% 66.7%
4dgwC00 2.60.40.2690 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 37.0 2.70e-01 83.0% 25.5%
2d42A02 3.10.450.380 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.51 38.0 3.50e-01 85.1% 60.0%
1aroP05 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.51 42.0 2.69e-01 91.5% 29.2%
3vz9B00 3.30.457.50 Alpha Beta › 2-Layer Sandwich › Copper Amine Oxidase; Chain A, domain 1 › Chromosome segregation protein Spc25 0.51 40.0 3.31e-01 100.0% 68.0%
1zh8A02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.51 41.0 2.79e-01 100.0% 23.6%
3ci0J02 2.10.70.20 Mainly Beta › Ribbon › Complement Module; domain 1 › gspk-gspi-gspj complex like domains 0.51 39.0 3.87e-01 93.6% 96.0%
1e25A00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.50 38.0 2.57e-01 100.0% 80.6%
ECOD (52)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4947615 3604.1.1.0 ↗ a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain 0.70 60.0 5.48e-01 100.0% 84.6%
3576376 7579.1.1.5 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Peptidase_S10 0.69 56.0 3.67e-01 100.0% 22.0%
4299660 12.3.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich 0.64 48.0 3.11e-01 95.7% 16.7%
3963007 2004.1.1.42 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.64 47.0 2.81e-01 83.0% 11.6%
4545641 2008.1.1.78 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RE_endonuc 0.64 53.0 3.72e-01 100.0% 36.5%
4432712 12.1.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.63 53.0 4.76e-01 100.0% 87.1%
3622516 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.63 52.0 4.18e-01 100.0% 98.2%
4991580 3124.1.1.0 ↗ beta sandwiches › Nascent polypeptide-associated complex (NAC) dimerization domain › Nascent polypeptide-associated complex (NAC) dimerization domain › Nascent polypeptide-associated complex (NAC) dimerization domain 0.62 52.0 5.11e-01 95.7% 98.0%
3717555 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.61 46.0 2.84e-01 85.1% 57.2%
4944869 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.61 44.0 3.33e-01 80.9% 29.2%
3795541 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 51.0 4.06e-01 100.0% 98.2%
3236244 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 48.0 3.84e-01 97.9% 68.7%
5017086 65.1.1.0 ↗ beta sandwiches › Composite domain of metallo-dependent hydrolases › Composite domain of metallo-dependent hydrolases › Composite domain of metallo-dependent hydrolases 0.60 44.0 3.23e-01 78.7% 31.2%
4987289 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.60 47.0 2.75e-01 91.5% 9.7%
3639350 511.1.1.0 ↗ beta sandwiches › Heat shock protein 70kD (HSP70), peptide-binding domain › Heat shock protein 70kD (HSP70), peptide-binding domain › Heat shock protein 70kD (HSP70), peptide-binding domain 0.60 46.0 3.36e-01 85.1% 91.3%
5027794 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.60 45.0 3.25e-01 85.1% 38.0%
3409665 206.1.1.20 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › PK_Tyr_Ser-Thr 0.59 43.0 2.69e-01 80.9% 22.3%
3788356 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.59 42.0 2.46e-01 78.7% 8.1%
5082109 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.59 47.0 3.92e-01 97.9% 95.8%
3811281 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.59 42.0 3.67e-01 87.2% 45.9%
3656952 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.58 42.0 3.29e-01 78.7% 34.8%
1175750 284.4.1.0 ↗ a+b two layers › FKBP-like › Archaeal FKBP insertion domain › Archaeal FKBP insertion domain 0.57 39.0 3.44e-01 83.0% 44.2%
3358147 220.1.1.241 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › EPL1 0.57 41.0 2.67e-01 78.7% 16.0%
3348808 632.7.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.56 43.0 2.57e-01 85.1% 10.4%
3617894 9.1.1.45 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › FBO_C 0.56 46.0 3.28e-01 97.9% 63.9%
3409738 295.1.1.4 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › COMM_domain 0.55 42.0 3.88e-01 87.2% 66.2%
3421470 12.3.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich 0.55 42.0 2.69e-01 100.0% 87.8%
4003943 883.1.1.0 ↗ a+b complex topology › Aha1/BPI domain-like › Aha1/BPI domain-like › Aha1/BPI domain-like 0.55 44.0 3.28e-01 97.9% 63.3%
2391612 319.2.1.1 ↗ beta sandwiches › HSP20-like › Pre-mRNA-splicing factor PRP11 C-terminal domain › Pre-mRNA-splicing factor PRP11 C-terminal domain › SF3A2 0.55 40.0 3.16e-01 83.0% 35.2%
4001559 837.1.1.1 ↗ a+b two layers › Ribosomal protein S16 › Ribosomal protein S16 › Ribosomal protein S16 › Ribosomal_S16 0.54 40.0 3.48e-01 91.5% 63.3%
3681185 2.1.1.130 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DUF223 0.54 38.0 2.56e-01 87.2% 16.2%
3962782 2003.1.5.66 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_11 0.53 37.0 2.60e-01 78.7% 21.9%
3917310 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.53 40.0 3.70e-01 87.2% 64.6%
1949187 298.1.1.24 ↗ a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › GFO_IDH_MocA_C3 0.52 42.0 2.95e-01 93.6% 27.6%
3284813 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.52 36.0 3.36e-01 83.0% 52.0%
3923810 1.1.1.0 ↗ beta barrels › cradle loop barrel › RIFT-related › acid protease 0.52 37.0 3.03e-01 100.0% 34.8%
3170091 243.1.1.116 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › PF29059 0.52 39.0 3.28e-01 100.0% 80.0%
3499411 2004.1.1.198 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.52 42.0 2.46e-01 100.0% 14.4%
3268736 2004.1.1.433 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_23 0.51 43.0 2.53e-01 100.0% 15.6%
3594033 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.51 39.0 2.51e-01 80.9% 40.4%
4649118 2484.1.1.197 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1, DNA_pol_B_exo2 0.51 40.0 2.46e-01 100.0% 45.6%
4933932 304.139.1.1 ↗ a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › DevR 0.51 39.0 2.54e-01 100.0% 79.4%
4319690 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.51 36.0 2.97e-01 87.2% 35.8%
4011180 298.1.1.0 ↗ a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain 0.51 44.0 3.13e-01 97.9% 31.3%
3382312 192.18.1.0 ↗ alpha bundles › Long alpha-hairpin › MxiH-like › MxiH-like 0.51 39.0 2.50e-01 87.2% 14.6%
4968580 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 35.0 3.37e-01 100.0% 58.5%
3980522 298.1.1.8 ↗ a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › GFO_IDH_MocA_C 0.51 39.0 2.56e-01 100.0% 17.1%
3481442 11.1.1.9 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arrestin_N 0.51 38.0 3.30e-01 83.0% 83.7%
3968795 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.50 36.0 2.43e-01 87.2% 80.4%
3241140 2004.1.1.199 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23,SbcC_Walker_B 0.50 40.0 2.30e-01 100.0% 9.3%
3287981 2.1.1.94 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › TLP1_add_C 0.50 39.0 3.33e-01 83.0% 54.7%
3453248 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.50 36.0 3.53e-01 100.0% 74.5%